SMTL ID : 6wy0.2 (3 other biounits)

CRYSTAL STRUCTURE OF MYELOPEROXIDASE SUBFORM C (MPO) COMPLEX WITH Compound-40 A.K.A 7-[(1R)-1-phenyl-3-{[(1r,4r)-4-phenylcyclohexyl]amino}propyl]-3H-[1,2,3]triazolo[4,5-b]pyridin-5-amine

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.80 Å

Oligo State

hetero-1-1-mer

Ligands

1 x NAG- NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose(Post Translational Modification)

NAG-NAG.1: 4 residues within 4Å: Chain B: N.113, S.115, W.257, L.261 No protein-ligand interaction detected (PLIP)

1 x NAG- NAG- BMA- MAN- MAN- FUC: alpha-D-mannopyranose-(1-3)-[alpha-D-mannopyranose-(1-6)]beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-[alpha-L-fucopyranose-(1-6)]2-acetamido-2-deoxy-beta-D-glucopyranose

NAG-NAG-BMA-MAN-MAN-FUC.2: 4 residues within 4Å: Chain B: N.205, S.207, V.208, R.392 2 PLIP interactions: 2 interactions with chain B Hydrophobic interactions: B:V.208 Hydrogen bonds: B:R.392

1 x HEC: HEME C(Covalent)

HEC.3: 24 residues within 4Å: Chain A: M.87, G.90, Q.91, D.94, D.98, F.99, T.100 Chain B: R.127, E.130, M.131, Y.184, T.217, F.220, R.221, G.223, H.224, I.227, F.253, L.294, F.295, L.305, L.308, R.312 Ligands: UFA.9 20 PLIP interactions: 14 interactions with chain B, 6 interactions with chain A, Hydrophobic interactions: B:E.130, B:M.131, B:F.220, B:R.221, B:I.227, B:F.253, B:L.294, B:F.295, B:L.305, B:L.305, A:Q.91, A:Q.91, A:D.94 Salt bridges: B:R.127, B:R.221, B:R.312 Metal complexes: B:H.224 Hydrogen bonds: A:D.98, A:T.100, A:T.100

3 x CL: CHLORIDE ION(Non-functional Binders)

CL.4: 5 residues within 4Å: Chain A: R.31, L.33 Chain B: L.318, P.319 Ligands: CL.8 Ligand excluded by PLIP CL.7: 3 residues within 4Å: Chain B: N.88, Q.89, F.101 Ligand excluded by PLIP CL.8: 6 residues within 4Å: Chain A: R.31, W.32 Chain B: N.214, V.215, W.324 Ligands: CL.4 Ligand excluded by PLIP

1 x NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose(Post Translational Modification)

NAG.5: 6 residues within 4Å: Chain B: N.77, N.80, L.84, A.86, V.87, Q.89 5 PLIP interactions: 5 interactions with chain B Hydrophobic interactions: B:A.86 Hydrogen bonds: B:N.80, B:V.87, B:Q.89, B:Q.89

1 x CA: CALCIUM ION(Non-covalent)

CA.6: 5 residues within 4Å: Chain A: D.96 Chain B: T.56, F.58, D.60, S.62 5 PLIP interactions: 1 interactions with chain A, 4 interactions with chain B Metal complexes: A:D.96, B:T.56, B:T.56, B:F.58, B:S.62

1 x UFA: 7-{(1R)-1-phenyl-3-[(trans-4-phenylcyclohexyl)amino]propyl}-3H-[1,2,3]triazolo[4,5-b]pyridin-5-amine(Non-covalent)

UFA.9: 16 residues within 4Å: Chain A: Q.91, H.95, F.99 Chain B: E.4, D.106, D.107, P.108, L.111, T.126, R.127, E.130, F.254, F.295, V.298, M.299 Ligands: HEC.3 10 PLIP interactions: 3 interactions with chain A, 7 interactions with chain B Hydrogen bonds: A:Q.91, A:H.95, B:R.127 Water bridges: A:T.100 Hydrophobic interactions: B:D.106, B:P.108, B:L.111, B:R.127, B:F.254, B:V.298

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Shaw, S.A. et al., Discovery and structure activity relationships of 7-benzyl triazolopyridines as stable, selective, and reversible inhibitors of myeloperoxidase. Bioorg.Med.Chem. (2020)

Release Date

2020-10-14

Peptides

Myeloperoxidase light chain: A
Myeloperoxidase heavy chain: B

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
D

B
E

Myeloperoxidase light chain

Myeloperoxidase heavy chain

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